Sample information curated by ChIP-Atlas

Antigen

Antigen Class
TFs and others
Antigen
SATB1

Cell type

Cell type Class
Breast
Cell type
MCF 10A
Primary Tissue
Breast
Tissue Diagnosis
Fibrocystic Disease

Attributes by original data submitter

Sample

source_name
MCF10A expressing satb1 fusion
cell line
MCF10A
cell type
human mammary gland epithelial cell line
genotype/variation
expressing N-terminal domain of Satb1
chip antibody
Anti-GFP antibody (Abcam, Ab290)

Sequenced DNA Library

library_strategy
ChIP-Seq
library_source
GENOMIC
library_selection
ChIP
library_construction_protocol
Cells are fixed, washed, and lysed to purify the nuceli. Then chromatin were fragmented with Covaris, and mixed with antibody and beads to pull down the bound fraction as described in the manuscript Standard CHIP-seq libraries made using NEBnext Ultra II kit from chipped DNA

Sequencing Platform

instrument_model
Illumina Genome Analyzer

hg19

Number of total reads
37607848
Reads aligned (%)
89.7
Duplicates removed (%)
6.8
Number of peaks
1348 (qval < 1E-05)

hg38

Number of total reads
37607848
Reads aligned (%)
92.8
Duplicates removed (%)
4.7
Number of peaks
1849 (qval < 1E-05)

Base call quality data from DBCLS SRA